Pierre Morisse comments

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                                            Pierre Morisse

Inflated size of corrected reads compared to input fasta

Also, could you randomly pick any header from your corrected reads file, and perform a `grep "^header" Alignments.paf -n` and show me what it reports?

Inflated size of corrected reads compared to input fasta

Hi Annabel, 1. Yeah, it would indeed seems like each read is corrected multiple times. No, the number of threads should not have anything to do with the output. My...

Inflated size of corrected reads compared to input fasta

Hi Annabel, No worries. Thanks for providing me the correct file. It indeed looks like there was an issue with the paf processing. However, if you're telling me the binaries...

Inflated size of corrected reads compared to input fasta

Just pushed a fix that should fix the issue. The problem was my distracted self, who forgot to add sources to a previous commit. Current version was an ugly mix...

CONSENT-polish fails at sort step

Hi Nadège, Sorry for answering so late, I'm quite busy with teaching lately. I believe the problem might be that you used more memory than your cluster allows you to?...

LRSIM crashes and reports "not defined chr1_182578874_182579@chr1"

For information, LRSIM does work well on a subset of human chr1, if that might help. Still not sure what's causing the issue on the full chromosome though.